Science Park Next-Generation Sequencing Core - Smithville
Jianjun (J-J) Shen, Ph.D.
Director
The University of Texas MD Anderson Cancer Center Science Park Next-Generation Sequencing (NGS) Facility was established in 2012, supported by a $6M Core Facility Support Award from CPRIT. Support for this facility was competitively renewed in 2016 with an additional $5M CPRIT Core Facility Support Award. Our facility is a regional NGS resource in central Texas that supports innovative and high-impact cancer research requiring extensive NGS DNA- or RNA-sequencing capabilities. Our NGS facility is built around a user group of over 40 cancer researchers from MD Anderson Science Park and Houston campuses, UT Austin, UT Medical School Houston, Baylor College of Medicine, The Methodist Hospital Research Institute, Rice University, Texas A&M, and Texas State University - San Marcos. Other qualified researchers in the Central Texas Region can access services of the NGS Facility, subject to availability of time on the sequencer. We have established several sequencing protocols, including protocols for low-input samples and their associated bioinformatics pipelines. We continue to add new capabilities based on the research needs of our user group.
Use of this core requires acknowledgement of CPRIT Core Facility Support Grants (#RP120348 & #RP170002) in your publications regardless of funding source.
Director and Staff
Director
Professor Jianjun (J-J) Shen, Ph.D.
jianshen@mdanderson.org
512-237-9558
Link to CV
Biostatistics and Bioinformatics
Associate Professor Yue Lu, Ph.D.
ylu4@mdanderson.org
512-237-9527
Associate Professor Bin Liu, Ph.D.
bliu1@mdanderson.org
512-237-9437
Recent Publications
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NAR Cancer, 2020
Defining the mutation signatures of DNA polymerase θ in cancer genomes.
Hwang T, Reh S, Dunbayev Y, Zhong Y, Takata Y, Shen J, McBride KM, Murnane JP, Bhak J, Lee S, Wood RD, Takata KI
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Cancer Research, 2020
Transcriptional activation of Myc-induced genes by Gcn5 promotes B-cell lymphomagenesis
Farria AT Plummer JB, Salinger AP, Shen J, Lin K, Lu Y, McBride KM, Koutelou E, Dent SYR
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Nucleic Acids Research, 2019
Structural basis of specific DNA binding by the transcription factor ZBTB24
Ren R, Hardikar S, Horton JR, Lu Y, Zeng Y, Singh AK, Lin K, Coletta LD, Shen J, Lin Kong CS, Hashimoto H, Zhang X, Chen T, Cheng X.
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Life Sci Alliance, 2018
CARM1 methylates MED12 to regulate its RNA-binding ability.
Cheng D, Vemulapalli V, Lu Y, Shen J, Aoyagi S, Fry CJ, Yang Y, Foulds CE, Stossi F, Treviño LS, Mancini MA, O'Malley BW, Walker CL, Boyer TG, Bedford MT.
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Clinical Cancer Research, 2017
Down-regulation of human endogenous retrovirus type K (HERV-K) viral env RNA in pancreatic cancer cells decreases cell proliferation and tumor growth.
Li M, Radvanyi L, Yin B, Rycaj K, Li J, Chivukula R, Lin K, Lu Y, Shen J, Chang DZ, Li D, Johanning GL, Wang-Johanning F.
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PLoS Genetics, 2017
Analysis of DNA polymerase ν function in meiotic recombination, immunoglobulin class-switching, and DNA damage tolerance.
Takata KI, Reh S, Yousefzadeh MJ, Zelazowski MJ, Bhetawal S, Trono D, Lowery MG, Sandoval M, Takata Y, Lu Y, Lin K, Shen J, Kusewitt DF, McBride KM, Cole F, Wood RD.
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Nature Chemical Biology, 2017
Developing Spindlin1 small-molecule inhibitors by using protein microarrays.
Bae N, Viviano M, Su X, Lv J, Cheng D, Sagum C, Castellano S, Bai X, Johnson C, Khalil MI, Shen J, Chen K, Li H, Sbardella G, Bedford MT.